View source: R/spatial_interaction_visuals.R
plotCCcomDotplot | R Documentation |
Plots dotplot for ligand-receptor communication scores in cell-cell interactions
plotCCcomDotplot(
gobject,
comScores,
selected_LR = NULL,
selected_cell_LR = NULL,
show_LR_names = TRUE,
show_cell_LR_names = TRUE,
cluster_on = c("PI", "LR_expr", "log2fc"),
cor_method = c("pearson", "kendall", "spearman"),
aggl_method = c("ward.D", "ward.D2", "single", "complete", "average", "mcquitty",
"median", "centroid"),
show_plot = NA,
return_plot = NA,
save_plot = NA,
save_param = list(),
default_save_name = "plotCCcomDotplot"
)
gobject |
giotto object |
comScores |
communinication scores from |
selected_LR |
selected ligand-receptor combinations |
selected_cell_LR |
selected cell-cell combinations for ligand-receptor combinations |
show_LR_names |
show ligand-receptor names |
show_cell_LR_names |
show cell-cell names |
cluster_on |
values to use for clustering of cell-cell and ligand-receptor pairs |
cor_method |
correlation method used for clustering |
aggl_method |
agglomeration method used by hclust |
show_plot |
show plots |
return_plot |
return plotting object |
save_plot |
directly save the plot [boolean] |
save_param |
list of saving parameters from |
default_save_name |
default save name for saving, don't change, change save_name in save_param |
ggplot
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